regulon analysis

Regulon Analysis

Tools: pySCENIC

Usage

scrna-regulon <infile> <outdir> <version> <tfs> <cisdb> <motif>

Run Egulatory Network Inference with pySCENIC

positional arguments:
  infile               input file
  outdir               output file
  version              genome version name
  tfs                  genome transcript factor file
  cisdb                cisTarget databse
  motif                genome motif file

options:
  -h, --help           show this help message and exit
  --minGenes MINGENES  min gene counts for one cell
  --maxGenes MAXGENES  max gene counts for one cell
  --minCells MINCELLS  min cell counts for one gene
  --maxMT MAXMT        max percentage of mitochondrial